Alternatives and similar repositories for pufferfish

Users that are interested in pufferfish are comparing it to the libraries listed below

• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆79Updated last year
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆77Updated last year
• lh3 / ropebwt3
  BWT construction and search
  ☆117Updated 3 weeks ago
• refresh-bio / kmer-db
  Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…
  ☆92Updated 2 months ago
• COMBINE-lab / cuttlefish
  Building the compacted de Bruijn graph efficiently from references or reads.
  ☆90Updated 3 months ago
• ggonnella / gfapy
  Gfapy: a flexible and extensible software library for handling sequence graphs in Python
  ☆67Updated 9 months ago
• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆85Updated 5 months ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆105Updated 3 years ago
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• refresh-bio / agc
  Assembled Genomes Compressor
  ☆168Updated 8 months ago
• lh3 / unimap
  A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment
  ☆88Updated 4 years ago
• mourisl / Rcorrector
  Error correction for Illumina RNA-seq reads
  ☆67Updated last year
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆109Updated last year
• bcgsc / LINKS
  ⛓ Long Interval Nucleotide K-mer Scaffolder
  ☆75Updated 4 months ago
• guyduche / Blast2Bam
  Blast2Bam uses the XML results of Blastn, the reference and the fastQ or fasta file(s) to output a SAM file.
  ☆48Updated 4 years ago
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆94Updated 3 months ago
• smarco / BiWFA-paper
  Bidirectional WFA (Paper)
  ☆47Updated last year
• GATB / bcalm
  compacted de Bruijn graph construction in low memory
  ☆100Updated 10 months ago
• iqbal-lab-org / gramtools
  Genome inference from a population reference graph
  ☆97Updated 4 months ago
• seqan / lambda
  LAMBDA – the Local Aligner for Massive Biological DatA
  ☆81Updated 11 months ago
• fmfi-compbio / deepnano-blitz
  Very fast ONT basecaller
  ☆53Updated 3 years ago
• ekg / seqwish
  alignment to variation graph inducer
  ☆150Updated last month
• ksahlin / strobealign
  Aligns short reads using dynamic seed size with strobemers
  ☆174Updated this week
• TimD1 / vcfdist
  vcfdist: Accurately benchmarking phased variant calls
  ☆83Updated last week
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆67Updated 7 years ago
• yangao07 / abPOA
  abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
  ☆126Updated 3 weeks ago
• mourisl / centrifuger
  Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.
  ☆63Updated this week
• tlemane / kmtricks
  modular k-mer count matrix and Bloom filter construction for large read collections
  ☆84Updated 9 months ago
• lbcb-sci / graphmap2
  GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…
  ☆68Updated 2 years ago
• shenwei356 / unikmer
  A versatile toolkit for k-mers with taxonomic information
  ☆80Updated last year